Melanocortin 1 recep

Title:
Melanocortin 1 receptor (MC1R) gene sequence variation and
melanism in the grey (Sciurus carolinensis), fox (Sciurus niger) and
red (Sciurus vulgaris) squirrel
Running title:
Melanism and the melanocortin-1 receptor in three species of sciuridae
Helen McRobie, Department of Life Sciences, Anglia Ruskin University, Cambridge
CB1 1PT, UK email: helen.mcrobie@anglia.ac.uk
Linda King, Department of Life Sciences, Anglia Ruskin University, Cambridge CB1
1PT, UK email: linda.king@anglia.ac.uk
Cristina Fanutti, University of East Anglia, Norwich, NR4 7TJ, UK email:
c.fanutti@uea.ac.uk
Peter Coussons, Department of Life Sciences, Anglia Ruskin University, Cambridge
CB1 1PT, UK email peter.coussons@anglia.ac.uk
Nancy Moncrief, Virginia Museum of Natural History, Martinsville, VA 24112, USA
email: nancy.moncrief@vmnh.virgina.gov
Alison Thomas, Department of Life Sciences, Anglia Ruskin University, Cambridge
CB1 1PT, UK email: Alison.thomas@anglia.ac.uk
Abstract
Sequence variations in the melanocortin-1 receptor (MC1R) gene are associated with
melanism in many different species of mammals, birds and reptiles. The grey squirrel
(Sciurus carolinensis), found in the British Isles, was introduced from North
America in the late nineteenth century. Melanism in the British grey squirrel is
associated with a 24 base pair deletion in the MC1R. To investigate the origin of this
mutation we sequenced the MC1R of melanic grey squirrels from both the British
Isles and North America. Melanic grey squirrels of both populations had the same 24
base pair deletion associated with melanism. Given the significant deletion associated
with melanism in the grey squirrel, we sequenced the MC1R of both wildtype and
melanic fox squirrels (Sciurus niger) and red squirrels (Sciurus vulgaris).
Unlike the grey squirrel, no association between sequence variation in the MC1R and
melanism was found in these two species. We conclude that the melanic grey squirrel
found in the British Isles originated from one or more introductions of melanic grey
squirrels from North America. We also conclude that variations in the MC1R are not
associated with melanism in the fox and red squirrels.
Key Words
Melanism, Melanocortin-1 receptor, Sciurus carolinensis, Sciurus
niger, Sciurus vulgaris, squirrel
Introduction
Vertebrate pigmentation is the result of the coordinated action of many genes and cell
types and over 100 loci are thought to be involved (reviewed by Lin and Fisher
2007). Melanocytes, cells which synthesis pigment, produce two distinct forms of
melanin: eumelanin, which is a dark brown/black pigment, and phaeomelanin, which
is a paler red/yellow pigment. Hair colour depends on the distribution and relative
amounts of these two pigments, where darker hairs contain a greater proportion of
eumelanin (Robbins et al. 1993).
The genetic basis of melanic (dark) phenotypes has been described in a number of
mammals, birds and reptiles including mice (Robbins et al.1993), rock
pocket mice (Nachman et al. 2003), pigs (Kijas et al. 1998), fox
(Vage et al. 1997), cattle (Klungland et al. 1995; Theron et al. 2001),
dogs (Everts et al. 2000), chicken (Takeuchi et al. 1996), bananaquit
(Theron et al. 2001) and wall lizards (Buades et al. 2013) (reviewed in
Majerus and Mundy 2003). In the majority of reported cases, melanism is
associated with variation in one gene, the melanocortin 1 receptor (MC1R) gene. This
highly polymorphic gene encodes a seven-transmembrane G-protein coupled receptor
which is predominantly expressed in melanocytes. The MC1R plays a central role in
regulating melanin production in these specialised cells. The MC1R is activated by its
agonist, alpha melanocyte-stimulating hormone (α- MSH) (Donatien et al. 1992).
When the MC1R is bound by α-MSH, intracellular levels of cAMP are elevated
through a G-protein signalling pathway and eumelanin is produced. However, if the
MC1R is bound by its antagonist, agouti signalling protein (ASIP), α-MSH binding is
blocked, cAMP levels are reduced and phaeomelanin is produced (Abdel-Malek et al.
2001, Barsh et al. 2000, reviewed by Garcia-Borron et al. 2005 and Mountjoy et al.
1992).
The grey squirrel (Sciurus carolinensis) is a native of North America but has been
repeatedly introduced to the British Isles where it has become a highly successful
invasive species (Gurnell et al. 2004). These British grey squirrels have three distinct
colour morphs; wildtype grey, brown-black and jet black. Brown-black and jet black
morphs are both considered to be melanic. The first recorded sighting of a melanic
grey squirrel in the British Isles was in Bedfordshire in 1912 (Middleton 1931). The
range and population of these melanic squirrels have been increasing steadily over the
last century and they can now be seen regularly in many areas across the south of
England, particularly in the counties of Bedfordshire, Hertfordshire and
Cambridgeshire (McRobie 2012). We have previously reported that the genetic basis
of melanism in these British grey squirrels is associated with a 24 base pair (bp)
deletion in the MC1R, where the grey phenotype is homozygous for a wildtype
MC1R E+ allele, the jet black is homozygous for the MC1R ∆24 EB allele and the
brown-black is heterozygous for the E+ and EB alleles (McRobie et al. 2009). Melanic
grey squirrels are also common in North America where they live in mixed
populations with grey squirrels. Following on from our previous work, here we
investigate the origin of the melanic grey squirrel in Britain to establish if the 24 bp
deletion is a new mutation which occurred since its introduction, or whether melanic
grey squirrels were introduced from North America.
Given the clear association between the 24 bp deletion and melanism in the British
grey squirrel, we extended the study of variations in the MC1R to two other squirrel
species with melanic variants, the fox squirrel (Sciurus niger) and the red squirrel
(Sciurus vulgaris). All three squirrel species live in mixed populations where
wildtype morphs interbreed freely with melanic morphs of the same species (Gurnell
1987). The fox squirrel is a native of North America and has a spectrum of colour
morphs ranging from grizzled russet-orange through various shades of grey to black
(Moncrief et al. 2010). The red squirrel is native to Europe and also has a spectrum of
colour morphs ranging from russet-red, red-brown, brown, to black. Red squirrels can
also be black with a grey dorsum and black with red flanks (L. Lapini personal
communication). Given the previous finding of a mutation on the MC1R associated
with melanism in the closely related grey squirrel and considering the widespread role
of the MC1R in pigmentation, we chose this as the first candidate gene to investigate
for the genetic basis of melanism in the fox and red squirrels. In this study we
sequenced the entire MC1R gene of the fox and red squirrel for all colour morphs to
test the hypothesis that MC1R variation is associated with melanism in these species.
Methods and Materials
Grey squirrel samples were obtained from Cumbria, West Yorkshire,
Northamptonshire and Cambridgeshire in Britain and from Massachusetts, Virginia
and British Columbia in North America. Of the 51 wildtype samples, 45 were from
Britain and 6 from North America. Of the 44 melanic samples, 36 were from Britain
and 8 were from North America. 42 of these melanic samples were brown-black and 2
were jet black. All melanic grey squirrel samples from Britain were obtained from
Cambridgeshire, as melanic grey squirrels are absent from the other British locations
tested. A total of 9 fox squirrel samples were obtained from Georgia, North America,
4 being wildtype and 5 melanic. A total of 39 red squirrel samples were obtained,
including 33 from Italy of which 10 were wildtype and 23 melanic. All Italian
samples were obtained from the Friuli-Venezia Giulia region in north-eastern Italy:
30 from Udine, one from Pordenone, one from Gorizia and one from Trento. A
further 6 wildtype red squirrel samples were obtained from Inverness-shire and
Cumbria in Britain.
Total genomic DNA was extracted from muscle tissue using Qiagen DNeasy
extraction kits. The MC1R was amplified by PCR in 2 stages: 90% of the gene,
including the start codon at the beginning of the gene, was amplified using the
primers MSHR4F (5’-TGC TTC CTG GAC AGG ACT ATG-3’) and MC1R11R
(5’-TCG TGT CGT YGT GRA GGA AC-3’). The rest of the gene, including the 3’
end, was amplified using MC1Rdel (5’-AAC GCA CTG GAG ACG ACC ATC-3’)
and MC1Rer6 (5’-CTG GGC TTG AGA CCA GA-3’). A forward primer MC1RBF
(5’-CTG GTG AGC ACC TTC CTA CTG-3’) and reverse primer MC1RBR (5’CCA GCA GTA GGA AGG TG-3’) were used to sequence the MC1R∆24 allele of
the grey squirrel. All PCR reactions were carried out in duplicate on a DNA
thermocycler (Techne touchgene gradient) in a total volume of 25 µl
using approximately 25 ng template DNA, 1X TopTaq PCR buffer, 3
mM MgCl2, 0.2 mM dNTPs, 0.4 µM primers, and 1X TopTaq
polymerase. The following PCR conditions were used: initial denaturation 94oC
for 2 minutes, 30 cycles of 94oC for 30 seconds, 59oC for 30 seconds and 72oC for
one minute followed by a final extension at 72oC for 5 minutes. PCR products were
purified and sent for sequencing at Source BioScience, Cambridge. Chromatograms
were examined by eye to identify heterozygotes and sequences were aligned using
ClustalW to obtain the full MC1R sequence of the gene for each sample. Sequences
were compared to the MC1R sequences on GenBank to confirm that this was the
MC1R gene.
Results
Our results showed that the melanic grey squirrels of North America and the British
Isles had an identical 24 bp deletion in the MC1R. Figure 1 shows a schematic
diagram of the MC1R protein with deleted amino acids indicated. Of the 44 melanic
samples tested, the 42 brown-black samples were heterozygous and the two jet black
samples were homozygous for the MC1R∆24 EB (melanic) deletion.
Our results show no association between variation in the MC1R and melanism in
either fox or red squirrels. The MC1R in the fox squirrel has 945 bp, giving a 314
amino acid receptor. Two alleles were detected with three non-synonymous
substitutions. The substitutions were as follows with the wildtype grey squirrel MC1R
as reference. Allele 1: P15S and M167I (accession number KF052119). Allele 2:
P30S (accession number KF052120). Positions of these amino acids are shown on the
schematic diagram of the MC1R in figure 1. No observable differences in phenotype
were identified between these alleles.
Two alleles of the MC1R of the red squirrel were also identified. The first allele
(accession number KF188571) has 942 bp giving a 314 amino acid receptor with the
following substitutions compared to the wildtype grey squirrel MC1R: S10C, L21F,
T105M, T108A, N114D, A158V, R233C, A238V. The second allele (accession
number KF188572) has 939 bp giving a 313 amino acid receptor with the same
substitutions compared to the grey squirrel but also a single amino acid deletion,
Y180del. Positions of these amino acids are shown on the schematic diagram of the
MC1R in figure 1. All 33 Italian red squirrel samples (both melanic and wildtype)
were homozygous for allele 1. Five of the six British samples of the red squirrel (all
wildtype) were homozygous for the allele 2 and the other was heterozygous.
Discussion
Our results strongly support the conclusion that the presence of melanic grey squirrels
in Britain is the result of one or a few introductions from North America and not the
result of a new mutation. Squirrels from both Britain and North America showed the
same phenotypic and corresponding genotypic variation where wildtype squirrels
were grey and homozygous for the wildtype E+ allele, brown-black squirrels were
heterozygous for the wildtype E+ and MC1R-∆24 EB allele and the jet black
squirrels were homozygous for the MC1R-∆24 EB allele.
Our results show no association between variation in the MC1R and melanism in
either fox or red squirrels. In cases where melanism is associated with variations in
this gene, phenotypic differences are often discrete and relatively large as
demonstrated in the grey squirrel (McRobie et al. 2009), bananaquit (Theron et al.
2001), chicken (Takeuchi et al. 1996), mice (Robbins et al. 1993), jaguars (Eizirik et
al. 2003), and pigs (Kijas et al. 1998). In both the fox and red squirrel however, there
are no such clear distinctions between phenotypes and the colour differences are more
subtle, presenting a continuous spectrum of colour variation. A similar spectrum of
variation is also observed in the gopher (Wlasiuk and Nachman 2007), three mustelid
lineages (Hosoda et al. 2005), Old World leaf warblers (MacDougall-Shackleton
2003) and the blue-crowned manakin (Cheviron et al. 2006). In all of these cases,
where there is a wide spectrum of colour morphs, melanism is not associated with
variations in the MC1R. These findings suggest that cases where melanism is
graduated across a species, genes other than the MC1R may be responsible.
The MC1R gene is well characterised in a wide variety of species and the number of
cases reporting the association of the MC1R to melanism indicates that this is a good
candidate gene (Hoekstra 2006). However, it is likely that there is an ascertainment
bias where positive results are more likely to be reported in this intronless gene which
is relatively easy to sequence and analyse (Mundy 2005). Other key genes involved in
pigmentation are more complex, for example ASIP which has three coding exons
(Abdel-Malek et al. 2001) and is considerably harder to work with and therefore less
likely to be reported. A number of other studies investigating the MC1R have
highlighted the complex nature of the genetics of pigmentation. For example, large
deletions in the first extracellular region of the receptor are associated with melanism
in the jaguar (15 bp), jaguarundis (24 bp) (Eizirik et al. 2003) and grey squirrel (24
bp) (McRobie et al. 2009). In contrast, deletions almost identical to these are not
associated with melanism in the wolverine (15 bp), stone marten (28 bp), four species
of martens (Hosada et al. 2005) (45 bp) and the gopher (Wlasiuk and Nachman 2007)
(21 bp). Further analysis of protein expression and function would be necessary to
elucidate the effect of these deletions.
The study of melanism has provided many examples of convergent evolution. In some
cases the same genes are associated with melanism in distantly related taxa and
conversely different genes produce similar phenotypes in closely related taxa. Thus
similar phenotypes can be the result of different underlying mechanisms (Gompel and
Prud’homme 2009 and reviewed by Manceau et al. 2010). Rosenblum et al. (2010)
demonstrated that independent mutations on the MC1R were associated with similar
phenotypes in three species of white lizards (eastern fence lizard, little striped
whiptail and lesser earless lizard). A number of studies have identified mutations in
cis-regulatory elements involved in pigmentation (Gompel et al. 2005 and reviewed
by Hoekstra 2006). These studies highlight the importance of investigating protein
function as well as regulatory regions in elucidating the genetic and molecular basis
of melanic phenotypes.
The genetics and molecular cell biology of pigmentation is clearly complex and it
seems likely that melanism is polygenic in many cases, particularly where differences
between phenotypes are relatively small as suggested by Wlasiuk and Nachman
(2007). Given the wide spectrum of colour morphs in the fox and red squirrels, and
the complex phenotypes in the red squirrel where different body parts are differently
coloured, it seems possible that colouration is polygenic and may involve genes in the
early stages of development, in the regulation of hormones or indeed the regulation of
receptors. There are likely to be many more as-yet unidentified loci involved in
pigmentation. The phenotypes observed in the fox and red squirrels may be associated
with mutations in one or a few of these other candidate genes or in regulatory
sequences of genes.
Overall our results confirm the polymorphic nature of the MC1R gene with even
small sample sizes revealing substitutions and deletions. We conclude that the
melanic grey squirrel found in the British Isles originated from one or more
introductions of melanic grey squirrels from North America. We also conclude that
variations in the MC1R are not associated with melanism in the fox and red squirrels.
Future studies exploring other candidate genes or regulatory regions of genes, for
example ASIP, would no doubt provide insight into the genetics of melanism in the
fox and red squirrel.
Funding
This work was supported by Anglia Ruskin University.
Acknowledgements
We are very grateful to Luca Lapini from the Friuli Museum of Natural History,
Udine, Italy for providing samples of red squirrel tissue from Italy, to Professor Buzz
Hoagland from Westfield State College Department of Biology Massachussetts for
samples of grey squirrels, to Dr Sheila Pankhurst of Anglia Ruskin University for
samples of red squirrels, to Nicola Wain for experimental work and to Mark D’Arcy
for IT support.
References
Abdel-Malek ZA, Scott MC, Furumura M, Lamoreux ML, Ollmann M,
Barsh GS, Hearing VJ. 2001. The melanocortin 1 receptor is the principal
mediator of the effects of agouti signalling protein on mammalian melanocytes. J Cell
Sci. 114:1019–1024.
Barsh G, Gunn, Schlossman S, Duke-Cohan J. 2000. Biochemical and genetic studies
of pigment-type switching. Pigment Cell Res. 13:48-53.
Buades JM, Rodríguez V, Terrasa B, Pérez-Mellado V, Brown RP. 2013. Variability
of the mc1r Gene in Melanic and Non-Melanic Podarcis lilfordi and Podarcis
pityusensis from the Balearic Archipelago. PLoS ONE. 8:e53088.
Cheviron ZA, Hackett SJ, Brumfield RT. 2006. Sequence variation in the coding
region of the melanocortin-1 receptor gene (MC1R) is not associated with plumage
variation in the blue-crowned manakin (Lepidothrix coronata). Proc. R. Soc. B.
273:1613-1618
Donatien PD, Hunt G, Pieron C, Lunec J, Taieb A, Thoday AJ. 1992. The expression
of functional MSH receptors on cultured human melanocytes. Arch. Dermatol. Res
284:424-426.
Eizirik E, Yuhki N, Johnson WE, Menotii-Raymond M, Hannah SS, O’Brien SJ.
2003. Molecular genetics and evolution of melanism in the cat family. Current
Biology. 13:448-453.
Everts RE, Rothuizen J, van Oost BA. 2000. Identification of a premature
stop codon in the melanocyte-stimulating hormone receptor gene (MC1R)
in Labrador and Golden retrievers with yellow coat colour. Animal Genetics. 31:194–
199.
Garcia-Borron JC, Sanchez-Laorden BL, Jimenez-Cervantes C. 2005.
Melanocortin-1 receptor structure and functional regulation. Pigment Cell Res.
18:393–410.
Gompel N, Prud’homme B, Wittkopp PJ, Kassner VA, Carroll SB. 2005. Chance
caught on a wing: cis-regulatory evolution and the origin of pigment patterns in
Drosophila. Nature. 433:481-487.
Gompel N, Prud’homme B. 2009. The causes of repeated genetic evolution.
Development Biology. 332:36-47.
Gurnell J. 1987. The Natural History of Squirrels. Christopher Helm: London
Hoekstra HE. 2006. Genetics, development and evolution of adaptive pigmentation in
vertebrates. Heredity. 97:222-234.
Hosoda T, Sato JJ, Shamada KL, Campbell KL, Suzuki H. 2005. Independent
nonframeshift deletions in the MC1R gene are not associated with melanistic coat
colouration in three mustelid lineages. Journal of Heredity. 96: 607-613.
Kijas JMH, Wlaes R, Tornsten A, Chardon P, Moller M, Andersson L. 1998.
Melanocortin receptor 1 (MC1R) mutations and coat colour in pigs. Genetics.
150:1177–1185.
Klungland H, Vage DI, Gomez-Raya L, Adalsteinsson S, Lien S. 1995. The
role of the melanocyte-stimulating hormone (MSH) receptor in bovine coat colour
determination. Mamm. Genome. 6:636–639.
Lin J, Fisher D. 2007. Melanocyte biology and skin pigmentation. Nature. 445:843–
850.
MacDougall-Shackleton EA, Blanchard L, Gibbs HL. 2003 Unmelanized plumage
patterns in old world leaf warblers do not correspond to sequence variation at the
melanocortin-1 receptor locus (MC1R). Mol. Bio. Evol. 20:1675-1681.
Majerus MEN, Mundy NI. 2003. Mammalian melanism: natural selection in black
and white. Trends in Genetics. 19:585-588.
Manceau M. Domingues VS. Linnen CR. Rosenblum EB. Hoekstra HE. 2010.
Convergence in pigmentation at multiple levels: mutations, genes and function. Phil.
Trans. R. Soc. B. 365:2439-2450.
Middleton AD. 1931. The grey squirrel. London: Sidgwick and Jackson.
McRobie H. 2012. Black squirrel: genetics and distribution. Quarterly Journal of
Forestry. 106:137-141.
McRobie H, Thomas A, Kelly J. 2009. The genetic basis of melanism in the gray
squirrel (Sciurus carolinesis). Journal of Heredity. 100: 709–714
Moncrief ND, Lack JB, Van Den Bussche RA. 2010. Eastern fox squirrel (Sciurus
niger) lacks phylogeographic structure: recent range expansion and phenotypic
differentiation. Journal of Mammology. 91:1112-1123.
Mountjoy KG, Robbins LS, Mortrud MT, Cone RD. 1992. The cloning of a family of
genes that encode the melanocortin receptors. Science. 254:1248-1251.
Mundy NI. 2005. A window on the genetics of evolution: MC1R
and plumage colouration in birds. Proc. R. Soc. Lond. B Biol. Sci. 272:1633–1640.
Nachman MW, Hoekstra HE, D’Agostino SL. 2003. The genetic basis of adaptive
melanism in pocket mice. PNAS. 100:5268–5273.
Robbins LS, Nadeau JH, Johnson KR, Kelly MA, Roselli-Rehfuss L, Baack
E, Mountjoy KG, Cone RD. 1993. Pigmentation phenotypes of variant
extension locus alleles result from point mutations that alter MSH receptor function.
Cell. 72: 827–834.
Rosenblum EB. Rompler H. Schoneberg T. Hoekstra HE. 2010. Molecular and
functional basis of phenotypic convergence in white lizards at White Sands. PNAS.
107:2113-2117.
Takeuchi S, Suzuki H, Hirose S, Yabuuchi M, Sato C, Yamamoto H,
Takahashi S. 1996. Molecular cloning and sequence analysis of the chick
melanocortin 1 receptor gene. Biochim Biophys Acta. 1306:122–126.
Theron E, Hawkins K, Bermingham E, Ricklefs RE, Mundy NI. 2001. The
molecular basis of avian plumage polymorphism in the wild: a melanocortin-1receptor point mutation is perfectly associated with the melanic plumage morph of
the Bananaquit (Coereba flaveola). Curr Biol. 11:550–557.
Vage DI, Lu D, Klungland H, Lien S, Adalsteinsson S, Cone R.D. 1997. A
non-epistatic interaction of agouti and extension in the fox, Vulpes vulpes. Nat Genet.
15:311–315.
Wlasiuk G, Nachman MW. 2007. The genetics of adaptive coat color in gophers:
coding variation at Mc1r is not responsible for dorsal color differences. Journal of
Heredity. 98:567-574.
Figure legend
Figure 1. Schematic diagram of the MC1R showing amino acids of the wildtype grey
squirrel (S. carolinensis). Dark grey circles with white lettering indicate the eight
amino acids deleted in the MC1R-∆24 EB allele. Light grey circles and black circles
indicate amino acids in the fox (S. niger) and red (S. vulgaris) squirrel respectively
that differ from those of the grey squirrel. The circle with vertical stripes is the amino
acid deleted in allele 2 of the red squirrel MC1R. Information for the predicted
structure of the MC1R protein was obtained from Mundy (2005).